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path: root/Source/Python/WarpX_py.cpp (unfollow)
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2021-08-25rearranging the loops (#2231)Gravatar Lorenzo Giacomel 1-22/+15
2021-08-25Avoid Unnecessary FFTs of rho (#2234)Gravatar Edoardo Zoni 1-2/+6
2021-08-25Fix: Missing Include Guards (FWD) (#2226)Gravatar Axel Huebl 19-20/+112
* Fix: Missing Include Guards (FWD) All header files need include guards to avoid double definitons. * Fix copy-paste guard
2021-08-24Alphabetized and added PR to glossary (#2228)Gravatar Tiberius Rheaume 1-2/+3
2021-08-24WarpXComm.cpp: Fix Bug (Uninitialized MultiFabs) (#2230)Gravatar Edoardo Zoni 1-0/+6
2021-08-24Docs: Fix Summit Python (#2227)Gravatar Axel Huebl 1-1/+1
We cannot use an anaconda base package, since anaconda ships its own libstdc++ for its compiler stack, which is not compatible with our compiler choice.
2021-08-24Avoid an NaN in collision module (#2225)Gravatar Yinjian Zhao 1-2/+7
* Update inputs_3d * Update inputs_2d * Update inputs_2d * Update inputs_3d * fix nan
2021-08-23Use the function `SyncRho` and the array `rho_fp` in the Electrostatic ↵Gravatar Remi Lehe 2-16/+8
solver (#1811) * Use `SyncRho` in Electrostatic solver * Reuse rho_fp arrays * Allocate arrays for rho * Fix unused variable * Fix bug in rho deposition * Only use rho_fp in lab-frame Poisson solver * Update test cases * Incorporate PR comments
2021-08-23Enable restart with PSATD (#1367)Gravatar Remi Lehe 6-9/+98
* Enable restart with PSATD * Add new restart test * Add new input file * New CI Test: Fix Inputs, Fix Analysis Script * Reuse input for Restart with FDTD * Read time_of_last_gal_shift from Checkpoint * Upload Benchmark for restart_psatd * Update Benchmark for restart_psatd Co-authored-by: Edoardo Zoni <ezoni@lbl.gov>
2021-08-23Ascent/SENSEI: Add Profiler (#2204)Gravatar Axel Huebl 2-0/+15
* Ascent/SENSEI: Add Profiler Add overall write profilers to Ascent & SENSEI. Add detailed profile for sub-operaions (blueprint, publish, execute) to Ascent as well. * Simplify One-Time Profiler Vars
2021-08-23Check for unused WarpX environment variables when compiling (#2208)Gravatar Michael Kieburtz 1-21/+27
* Added check for unused 'WarpX' environment variables * Changed the approach of this - Go through environment variables as they are used to set cmake flags, and then check any remaining if they start with warpx. * Improved the warning message Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
2021-08-23Scalar field interpolator from grid to particle position (#2221)Gravatar Roelof Groenewald 4-80/+133
* refactored distance to EB calculation to have a more general function to interpolate from a scalar field on the grid to a given position * changed RZ error message to general interpolation function * changed function names to specify that scalar field interpolation is for a nodal field only
2021-08-23AMReX/PICSAR: Weekly Update (#2222)Gravatar Axel Huebl 4-4/+4
Weekly update to latest AMReX. No changes in PICSAR.
2021-08-23No particle resorting when no species (#2136)Gravatar Revathi Jambunathan 1-16/+21
* default sort interval for particles if there are not species * declare parmparse Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com> * fix eol * define and set sort_interval default to -1 and then reset them to 4 for GPU, -1 for CPU if there are species/lasers in the input Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
2021-08-23Docs: Cori PICMI Instructions (#2219)Gravatar Axel Huebl 1-24/+94
* Docs: Cori PICMI Instructions Too tricky to get right to just cross-link - add documentation how to build & run PICMI interfaces on Cori. * Link: Jupyter Instructions
2021-08-23Evolve: Reorder py_afterstep and cur_time break (#2213)Gravatar Peter Scherpelz 1-10/+13
2021-08-20Added transform of fields from lab to boosted frame (#2201)Gravatar David Grote 3-8/+58
2021-08-20Allow Silver-Mueller boundary conditions to only be applied in certain ↵Gravatar Remi Lehe 6-66/+57
directions (#2220) * Apply Silver-Mueller boundary only in requested direction * Include a test with independent Silver-Mueller boundary conditions * Correct typo in implementation
2021-08-20Docs: OLCF ADIOS2 Currently BrokenGravatar Axel Huebl 1-1/+1
Tickets open: - OLCFHELP-3319 - https://github.com/ornladios/ADIOS2/issues/2836
2021-08-20Updated the installation instructions (#2218)Gravatar Michael Kieburtz 1-1/+1
2021-08-20Particle boundary scrape (#2124)Gravatar Andrew Myers 18-28/+462
* Some prelimary refactoring. * missing header * implement scraping particles that leave the domain boundaries into buffers * fix tabs * missing return * merging * remove redefinition * functor to work around cuda bug. * handle 2D * Add support for EB buffer * protect for AMREX_USE_EB, static_assert that EB and RZ aren't both on. * fix unused * add inputs file * add test * fix bugs, remove print * fix test * fix test path. * remove no-op code * adding clear particles method * attempt at adding time stamp * Use integer step number instead of physical time to timestamp particles; also put shared code into named functor. * move call to before apply boundary conditions * use more descriptive inputs parameter * Update Source/Particles/ParticleBoundaryBuffer.cpp * fix comp bug * move CopyAndTimestamp to cpp file * also move IsOutsideProblemDomain functor * Rename to m_particle_boundary_buffer - Name: currently only used for boundary scraping - Singular: only one instance * Fix missing EOF newline * Typo: author * Param Read / Init: Cleanup For Simplify Co-authored-by: Roelof Groenewald <40245517+roelof-groenewald@users.noreply.github.com> Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
2021-08-20Improved error handling when the libwarpx shared object library can't be ↵Gravatar Michael Kieburtz 1-2/+7
loaded (#2215) * Improved error handling when the libwarpx shared library can't be loaded * Removed extra newline * Improved check and ended program on error
2021-08-20Docs: Summit with RHEL8 (#2216)Gravatar Axel Huebl 1-16/+13
Summit has undergone a major software update to RHEL8. The default compilers and CUDA version have been modernized, among others providing C++17 support by default. Also, our scientific I/O stack is now system-provided, thanks to our Spack and E4S efforts :tada: Please update your `warpx.profile` on Summit, re-build your Python virtual environment and re-compile your executables.
2021-08-20Add plot_raw_rho in parameters doc (#2212)Gravatar Neïl Zaim 1-0/+5
* add plot_raw_rho in parameters doc * Update Docs/source/usage/parameters.rst Co-authored-by: Luca Fedeli <luca.fedeli@for.unipi.it> Co-authored-by: Luca Fedeli <luca.fedeli@for.unipi.it>
2021-08-19Ionization.H: Fix Bug (Division by Zero) (#2214)Gravatar Edoardo Zoni 1-1/+1
2021-08-19Implemented the parsing of integer input parameters (#2138)Gravatar David Grote 5-49/+180
* Implemented the integer parser * Updated comment * Updated documentation * Fixed unused parameters * Added some additional documentation * Reworked the implementation so that expressions are evaluated as real and rounded to the nearest integer * Fixed loop type * Copied over initial value of variable to the real instance * Update Source/Utils/WarpXUtil.cpp make result const * Update Source/Utils/WarpXUtil.cpp make result const * Update Source/Utils/WarpXUtil.cpp Fix comment * Added safeCastToInt * Fixed adding of safeCastToInt * Cleaned up safe casting routine * Added parsing of more integer inputs * Cleaned up the integer parser, removing unneeded cast from int to real * Made x a const in safeCastToInt Co-authored-by: Neïl Zaim <49716072+NeilZaim@users.noreply.github.com> Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
2021-08-18Bug fixed: looping over all species now within `OneStep_multiJ` (#2207)Gravatar Olga Shapoval 1-6/+4
* Bug fixed: looping over all species now within 'OneStep_multij' * Bug fixed: looping over all laser particles within DepositCharge in multi-J
2021-08-18Rho Diags: Do Not Allocate `rho_fp/cp`, Remove `plot_rho`, `setplot_rho` (#2203)Gravatar Remi Lehe 6-32/+7
2021-08-18update use-sensei flag (#2192)Gravatar Corey Wetterer-Nelson 15-36/+51
* update use-sensei flag also add FlushFormatSensei.cpp to CMakeLists * CMake: WarpX SENSEI Option Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
2021-08-18openPMD-api: 0.14.2 (#2150)Gravatar Axel Huebl 14-27/+23
This updates our requirements to openPMD-api 0.14.2+ Among others, this release introduced resizable data sets, which we will soon use for particle backtransformed diagnostics.
2021-08-17CI: Cancel Prev. GH Action on Push (#2202)Gravatar Axel Huebl 7-0/+28
Save CI resources by canceling already running or waiting builds if a PR is updated. This was previously only done for Azure and now also for GH actions.
2021-08-16Minor fix to the documentation of the plasma lens (#2200)Gravatar Remi Lehe 1-1/+1
2021-08-16Update Scripts: .ini file (#2191)Gravatar Axel Huebl 2-0/+48
Update regression tester .ini files as well in weekly/release updates of AMReX and PICSAR.
2021-08-16Use less guard cells in ParallelCopy of refined level's UpdateAuxilaryData ↵Gravatar Neïl Zaim 1-8/+24
(#2144) * Use less guard cells in ParallelCopy of refined level's UpdateAuxilaryData * Update Source/Parallelization/WarpXComm.cpp * Add inline comments and use explicit type for ng_src Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
2021-08-16Multi-J (Hybrid): Fix Bug with Current Centering (#2181)Gravatar Edoardo Zoni 1-2/+4
2021-08-16do_pml should not be parsed anymore. (#2183)Gravatar Revathi Jambunathan 23-61/+25
* do_pml not parsed. remove code that was added to support both types of boundary interface * add paranthesis * fix eol and move to BackwardCompatibility * missing semicolon * Update Source/WarpX.cpp * clean input files in examples * delete do_pml in performance test input * fixing an example input file in docs * Update Source/WarpX.cpp Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * cleaning up docs * Update Docs/source/usage/parameters.rst * fix eol Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
2021-08-16AMReX/PICSAR: Weekly Update (#2199)Gravatar Axel Huebl 4-6/+6
Weekly update to latest AMReX. No changes in PICSAR.
2021-08-16Docs: Summit Ascent Moved (#2195)Gravatar Axel Huebl 1-1/+1
Raider is now Twix.
2021-08-16Fixed issue where GPU runs would continually print 're-sorting particles' ↵Gravatar Kevin Z. Zhu 1-1/+3
even with verbose turned off (#2197)
2021-08-13Docs: Fix Cori URL (404) (#2194)Gravatar Axel Huebl 1-1/+1
2021-08-13Implemented new style BTD in picmi (#2187)Gravatar David Grote 1-0/+87
* Implemented new style BTD in picmi * Added rho_species. Added documentation
2021-08-13WarpX::Version: Not Empty (#2193)Gravatar Axel Huebl 1-6/+12
Make sure we do not return an empty string in `WarpX::Version()`. In some situations, e.g., in CI/run_test.sh, the macro for the `WARPX_GIT_VERSION` version in GNUmake is set but empty. ` Since empty versions are problematic for HDF5 attributes and confusing anyway, we return a proper `"Unknown"` in such a situation now, too. Detected as bug in #2150 X-ref: - https://github.com/openPMD/openPMD-api/pull/1087 - https://github.com/openPMD/openPMD-api/pull/979
2021-08-11For plasma lens, mapped particle to lab frame (#2190)Gravatar David Grote 3-13/+27
* For plasma lens, mapped particle to lab frame * Updated documentation for plasma lens
2021-08-11Fix GetIteration (#2189)Gravatar Axel Huebl 2-8/+5
- use after free: returned a reference to a local - use copy elision to return a new iteration object
2021-08-11Docs: Turner Example Calibration Data (#2185)Gravatar Axel Huebl 1-0/+9
* Docs: Turner Example Calibration Data Add a note how to get the additional cross-section data for the user-facing capacitive discharge example. * Remove EOL whitespaces
2021-08-11Work-Around: ROCm/rocFFT <=4.3.0 (#2180)Gravatar Axel Huebl 2-2/+8
C++ template typedefs do not work in `extern C` blocks. This work-arounds this construct: https://github.com/ROCmSoftwarePlatform/rocFFT/blob/rocm-4.3.0/library/include/rocfft.h#L36-L42 This is fixed in the post 4.3.0 rocFFT `develop` branch already. Fixes build errors of the kind: ``` AnyFFT.H:15: In file included from /opt/rocm-4.1.0/hip/../include/rocfft.h:38: /usr/lib64/gcc/x86_64-suse-linux/7/../../../../include/c++/7/cstddef:69:21: error: explicit specialization of undeclared template struct '__byte_operand' template<> struct __byte_operand<bool> { using __type = byte; }; ```
2021-08-11[mini-PR] Radiation Reaction : fix issue in single precision (#2186)Gravatar Luca Fedeli 1-2/+2
* fix issue in single precision
2021-08-11Updated documentation for the plasma lens (#2182)Gravatar David Grote 1-2/+12
* Updated documentation for the plasma lens * Use math formatting for B * Use math formatting for E Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
2021-08-11AMReX/PICSAR: Weekly Update (#2184)Gravatar Axel Huebl 2-2/+2
Weekly update to latest AMReX. No changes in PICSAR.
2021-08-10CI: Cover Performance Tests (#2179)Gravatar Axel Huebl 7-0/+114
* CI: Cover Performance Tests Make sure their syntax stays up-to-date. * Performance Test in CI: Fake Output Add "fake" output so we do not have unused variables when the tests are run.
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